diff --git a/.gitignore b/.gitignore
index 0fafd85..14ad824 100644
--- a/.gitignore
+++ b/.gitignore
@@ -30,8 +30,8 @@ backend/yc_bench_log_*.txt
 agent.md
 
 # Benchmark runtime outputs
-db/
-logs/
+/db/
+/logs/
 
 # Claude session context — local only
 CLAUDE.md
diff --git a/src/yc_bench/agent/__init__.py b/src/yc_bench/agent/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/yc_bench/agent/commands/__init__.py b/src/yc_bench/agent/commands/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/yc_bench/agent/runtime/__init__.py b/src/yc_bench/agent/runtime/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/yc_bench/agent/tools/__init__.py b/src/yc_bench/agent/tools/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/yc_bench/db/__init__.py b/src/yc_bench/db/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/yc_bench/db/models/__init__.py b/src/yc_bench/db/models/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/yc_bench/runner/__init__.py b/src/yc_bench/runner/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/yc_bench/services/__init__.py b/src/yc_bench/services/__init__.py
new file mode 100644
index 0000000..e69de29